src Directory Reference

Files
	AnalyticCoil.cpp
	Implementation of AnalyticCoil.
	AnalyticCoil.h
	Implementation of AnalyticCoil.
	AnalyticGradPulse.cpp
	Implementation of JEMRIS AnalyticGradPulse.
	AnalyticGradPulse.h
	Implementation of JEMRIS AnalyticGradPulse.
	AnalyticPulseShape.cpp
	Implementation of JEMRIS AnalyticPulseShape.
	AnalyticPulseShape.h
	Implementation of JEMRIS AnalyticPulseShape.
	AnalyticRFPulse.cpp
	Implementation of JEMRIS AnalyticRFPulse.
	AnalyticRFPulse.h
	Implementation of JEMRIS AnalyticRFPulse.
	AtomicSequence.cpp
	Implementation of JEMRIS AtomicSequence.
	AtomicSequence.h
	Implementation of JEMRIS AtomicSequence.
	Attribute.cpp
	Implementation of Attribute.
	Attribute.h
	Implementation of Attribute.
	BinaryContext.h
	Implementation of JEMRIS Sample.
	BinaryIO.h
	Implementation of binary I/O.
	BiotSavartLoop.cpp
	Implementation of JEMRIS BiotSavartLoop.
	BiotSavartLoop.h
	Implementation of JEMRIS BiotSavartLoop.
	Bloch_CV_Model.cpp
	Implementation of JEMRIS Bloch_CV_Model.
	Bloch_CV_Model.h
	Implementation of JEMRIS Blo_CV_Model.h.
	Bloch_McConnell_CV_Model.cpp
	Implementation of JEMRIS Bloch_McConnell_CV_Model.
	Bloch_McConnell_CV_Model.h
	Implementation of JEMRIS Blo_CV_Model.h.
	Coil.cpp
	Implementation of JEMRIS Coil.
	Coil.h
	Implementation of JEMRIS Coil.
	CoilArray.cpp
	Implementation of JEMRIS CoilArray.
	CoilArray.h
	Implementation of JEMRIS CoilArray.
	CoilPrototypeFactory.cpp
	Implementation of JEMRIS CoilPrototypeFactory.
	CoilPrototypeFactory.h
	Implementation of JEMRIS CoilPrototypeFactory.
	ConcatSequence.cpp
	Implementation of JEMRIS ConcatSequence.
	ConcatSequence.h
	Implementation of JEMRIS ConcatSequence.
	config.h
	ConstantGradPulse.cpp
	Implementation of JEMRIS ConstantGradPulse.
	ConstantGradPulse.h
	Implementation of JEMRIS ConstantGradPulse.
	Container.cpp
	Implementation of JEMRIS Container.
	Container.h
	Implementation of JEMRIS Container.
	ContainerSequence.cpp
	Implementation of JEMRIS ContainerSequence.
	ContainerSequence.h
	Implementation of JEMRIS ContainerSequence.
	Debug.h
	Implementation of JEMRIS Debug.
	Declarations.h
	Implementation of JEMRIS Declarations.
	DelayAtomicSequence.cpp
	Implementation of JEMRIS DelayAtomicSequence.
	DelayAtomicSequence.h
	Implementation of JEMRIS DelayAtomicSequence.
	DOMTreeErrorReporter.cpp
	Implementation of JEMRIS DOMTreeErrorReporter.
	DOMTreeErrorReporter.h
	Implementation of JEMRIS DOMTreeErrorReporter.
	DynamicVariables.h
	Implementation of JEMRIS DynamicVariables.
	EddyPulse.cpp
	Implementation of JEMRIS EddyPulse.
	EddyPulse.h
	Implementation of JEMRIS EddyPulse.
	EmptyPulse.cpp
	Implementation of JEMRIS EmptyPulse.
	EmptyPulse.h
	Implementation of JEMRIS EmptyPulse.
	Event.h
	Implementation of JEMRIS sequence Event for hardware execution.
	ExternalCoil.cpp
	Implementation of JEMRIS ExternalCoil.
	ExternalCoil.h
	Implementation of JEMRIS ExternalCoil.
	ExternalGradPulse.cpp
	Implementation of JEMRIS ExternalGradPulse.
	ExternalGradPulse.h
	Implementation of JEMRIS ExternalGradPulse.
	ExternalPulseData.cpp
	Implementation of JEMRIS ExternalPulseData.
	ExternalPulseData.h
	Implementation of JEMRIS ExternalPulseData.
	ExternalRFPulse.cpp
	Implementation of JEMRIS ExternalRFPulse.
	ExternalRFPulse.h
	Implementation of JEMRIS ExternalRFPulse.
	GaussianRFPulse.cpp
	Implementation of JEMRIS GaussianRFPulse.
	GaussianRFPulse.h
	Implementation of JEMRIS GaussianRFPulse.
	ginac_functions.h
	Implementation of JEMRIS ginac_functions.
	GradPulse.cpp
	Implementation of JEMRIS GradPulse.
	GradPulse.h
	Implementation of JEMRIS GradPulse.
	HardRFPulse.cpp
	Implementation of JEMRIS HardRFPulse.
	HardRFPulse.h
	Implementation of JEMRIS HardRFPulse.
	HDF5IO.h
	Implementation of JEMRIS Sample.
	IdealCoil.cpp
	Implementation of JEMRIS IdealCoil.
	IdealCoil.h
	Implementation of JEMRIS IdealCoil.
	jemris.cpp
	Implementation of JEMRIS main executable (sequential version)
	KSpace.h
	Implementation of JEMRIS k-space position for reconstruction purposes.
	md5.h
	Microstructure.h
	MicrostructureBoxes.h
	MicrostructureCrossingFiber.h
	MicrostructureKissingFiber.h
	MicrostructureSingleFiber.h
	Model.cpp
	Implementation of JEMRIS Model.
	Model.h
	Implementation of JEMRIS Model.
	Module.cpp
	Implementation of JEMRIS Module.
	Module.h
	Implementation of JEMRIS Module.
	ModulePrototypeFactory.cpp
	Implementation of JEMRIS ModulePrototypeFactory.
	ModulePrototypeFactory.h
	Implementation of JEMRIS ModulePrototypeFactory.
	Mpi2Evolution.h
	Implementation of JEMRIS Mpi2Evolution.
	mpi_Model.h
	Implementation of JEMRIS mpi structures/functions for send/receive of sample/signal and of JEMRIS mpiEvolution.
	mtg_functions.h
	MultiPoolSample.h
	NDData.h
	OutputSequenceData.h
	Implementation of JEMRIS OutputSequenceData.
	Parameters.cpp
	Implementation of JEMRIS Parameters.
	Parameters.h
	Implementation of JEMRIS Parameters.
	pjemris.cpp
	Implementation of JEMRIS main executable (parallel version)
	Prototype.cpp
	Implementation of JEMRIS Prototype.
	Prototype.h
	Implementation of JEMRIS Prototype.
	PrototypeFactory.cpp
	Implementation of JEMRIS PrototypeFactory.
	PrototypeFactory.h
	Implementation of JEMRIS PrototypeFactory.
	Pulse.cpp
	Implementation of JEMRIS Pulse.
	Pulse.h
	Implementation of JEMRIS Pulse.
	RepIter.cpp
	Implementation of JEMRIS RepIter.
	RepIter.h
	Implementation of JEMRIS RepIter.
	RFPulse.cpp
	Implementation of JEMRIS RFPulse.
	RFPulse.h
	Implementation of JEMRIS RFPulse.
	Sample.cpp
	Implementation of JEMRIS Sample.
	Sample.h
	Implementation of JEMRIS Sample.
	SampleReorderShuffle.h
	Implementation of JEMRIS SampleReorderShuffle.
	SampleReorderStrategyInterface.h
	Implementation of JEMRIS of SampleReorderStrategyInterface.
	sanityck.cpp
	Implementation of JEMRIS unit test (santity-check)
	SechRFPulse.cpp
	Implementation of JEMRIS SechRFPulse.
	SechRFPulse.h
	Implementation of JEMRIS SechRFPulse.
	Sequence.cpp
	Implementation of JEMRIS Sequence.
	Sequence.h
	Implementation of JEMRIS Sequence.
	SequenceTree.cpp
	Implementation of JEMRIS SequenceTree.
	SequenceTree.h
	Implementation of JEMRIS SequenceTree.
	Signal.cpp
	Implementation of JEMRIS Signal.
	Signal.h
	Implementation of JEMRIS Signal.
	SimpleIO.h
	Implementation of JEMRIS Sample.
	Simulator.cpp
	Implementation of JEMRIS Simulator.
	Simulator.h
	Implementation of JEMRIS Simulator.
	SincRFPulse.cpp
	Implementation of JEMRIS SincRFPulse.
	SincRFPulse.h
	Implementation of JEMRIS SincRFPulse.
	SpiralGradPulse.cpp
	Implementation of JEMRIS SpiralGradPulse.
	SpiralGradPulse.h
	Implementation of JEMRIS SpiralGradPulse.
	spline.h
	StrX.cpp
	Implementation of JEMRIS StrX.
	StrX.h
	Implementation of JEMRIS StrX.
	TPOI.cpp
	Implementation of JEMRIS TPOI.
	TPOI.h
	Implementation of JEMRIS TPOI.
	Trajectory.h
	Implementation of JEMRIS Trajectory.
	Trajectory1D.h
	Implementation of JEMRIS Trajectory1D.
	TrajectoryDiffusion.h
	TrajectoryEmpty.h
	Implementation of JEMRIS TrajectoryEmpty.
	TrajectoryFlow.h
	Implementation of TrajectoryFlow.
	TrajectoryInterface.h
	Implementation of JEMRIS TrajectoryInterface.
	TrajectoryMotion.h
	Implementation of TrajectoryMotion.
	TrajectoryRespiration.cpp
	Implementation of TrajectoryRespiration.
	TrajectoryRespiration.h
	Implementation of TrajectoryRespiration.
	TrajectoryT2s.h
	Implementation of JEMRIS TrajectoryT2s.
	TrapGradPulse.cpp
	Implementation of JEMRIS TrapGradPulse.
	TrapGradPulse.h
	Implementation of JEMRIS TrapGradPulse.
	TriangleGradPulse.cpp
	Implementation of TriangleGradPulse.
	TriangleGradPulse.h
	Implementation of TriangleGradPulse.
	TxRxPhase.cpp
	Implementation of JEMRIS TxRxPhase.
	TxRxPhase.h
	Implementation of JEMRIS TxRxase.h.
	World.cpp
	Implementation of JEMRIS World.
	World.h
	Implementation of JEMRIS World.
	XMLIO.cpp
	Implementation of JEMRIS XMLIO.
	XMLIO.h
	Implementation of JEMRIS XMLIO.